A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.

Analyze your RNA sequencing data without writing a single line of code

User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins

Exome/Capture/RNASeq Pipeline Implementation using snakemake

Regulatory networks with Direct Information in python

Python implementation of bulk RNAseq deconvolution algorithms

A deep learning model (EVO2-500M) for predicting host specificity of eukaryote-infecting viruses CDNA sequence

Project Manager for NGS data analysis

PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.

RNAseq pipeline based on snakemake

Bulk RNA-seq Data Processing, Quality Control, and Downstream Analysis Pipeline

Exome/Capture/RNASeq Pipeline Implementation using snakemake

Long RNA-seq analysis workflow

Code, documentation, and tutorials for the DGD model trained on bulk RNA-Seq data.

Emending Alignment of Spliced Transcript Reads

RNA-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.

snakemake workflow for bulk RNA-seq workflow using STAR-edgeR

SmartRNASeqCaller is a post-processing pipeline to improve germline variant calling from RNA-Seq data

Nanopore direct tRNA sequencing method refinement and RNA modification benchmarking

A cli for running multiple qsub jobs with HTSeq's htseq-count on a cluster.